no code implementations • 16 Jan 2024 • Alexandra Blenkinsop, Nikos Pantazis, Evangelia Georgia Kostaki, Lysandros Sofocleous, Ard van Sighem, Daniela Bezemer, Thijs van de Laar, Marc van der Valk, Peter Reiss, Godelieve de Bree, Oliver Ratmann
Methods: We used partial HIV consensus sequences with linked demographic and clinical data from the opt-out ATHENA cohort of people with HIV in the Netherlands to quantify population-level sources of transmission to Dutch-born and foreign-born Amsterdam men who have sex with men (MSM) between 2010-2021.
no code implementations • 13 Jun 2023 • Magnus Koudahl, Thijs van de Laar, Bert de Vries
Active Inference (AIF) is a corollary of the FEP that specifically details how systems that are able to plan for the future (agents) function by minimising particular free energy functionals that incorporate information seeking components.
1 code implementation • 9 Jun 2023 • Bart van Erp, Wouter W. L. Nuijten, Thijs van de Laar, Bert de Vries
Bayesian state and parameter estimation have been automated effectively in a variety of probabilistic programming languages.
1 code implementation • 5 Jun 2023 • Thijs van de Laar, Magnus Koudahl, Bert de Vries
The Free Energy Principle (FEP) describes (biological) agents as minimising a variational Free Energy (FE) with respect to a generative model of their environment.
no code implementations • 13 Apr 2023 • Alexandra Blenkinsop, Lysandros Sofocleous, Francesco Di Lauro, Evangelia Georgia Kostaki, Ard van Sighem, Daniela Bezemer, Thijs van de Laar, Peter Reiss, Godelieve de Bree, Nikos Pantazis, Oliver Ratmann
In stopping the spread of infectious diseases, pathogen genomic data can be used to reconstruct transmission events and characterize population-level sources of infection.
no code implementations • 15 Mar 2022 • Alexandra Blenkinsop, Mélodie Monod, Ard van Sighem, Nikos Pantazis, Daniela Bezemer, Eline Op de Coul, Thijs van de Laar, Christophe Fraser, Maria Prins, Peter Reiss, Godelieve de Bree, Oliver Ratmann
Utilising molecular and clinical data of the ATHENA observational HIV cohort, our primary aims are to estimate the proportion of undiagnosed HIV infections and the proportion of locally acquired infections in Amsterdam in 2014-2018, both in MSM and heterosexuals and Dutch-born and foreign-born individuals.
no code implementations • 1 Sep 2021 • Thijs van de Laar, Magnus Koudahl, Bart van Erp, Bert de Vries
The AIF literature describes multiple VFE objectives for policy planning that lead to epistemic (information-seeking) behavior.
no code implementations • 17 Feb 2021 • Thijs van de Laar, Ismail Senoz, Ayça Özçelikkale, Henk Wymeersch
We illustrate how chance-constrained ActInf weights all imposed (prior) constraints on the generative model, allowing e. g., for a trade-off between robust control and empirical chance constraint violation.
1 code implementation • 8 Nov 2018 • Marco Cox, Thijs van de Laar, Bert de Vries
This paper explores a specific probabilistic programming paradigm, namely message passing in Forney-style factor graphs (FFGs), in the context of automated design of efficient Bayesian signal processing algorithms.
no code implementations • 3 Feb 2016 • Thijs van de Laar, Bert de Vries
Hearing Aid (HA) algorithms need to be tuned ("fitted") to match the impairment of each specific patient.